Chlorine in PDB 8tg4: Trna 2'-Phosphotransferase (TPT1) From Aeropyrum Pernix in Complex with Adp-Ribose-2"-Phosphate and 2'-Oh Rna

The structure of Trna 2'-Phosphotransferase (TPT1) From Aeropyrum Pernix in Complex with Adp-Ribose-2"-Phosphate and 2'-Oh Rna, PDB code: 8tg4 was solved by A.Jacewicz, S.Dantuluri, S.Shuman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.86 / 1.37
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	39.844, 55.701, 42.249, 90, 97.79, 90
R / Rfree (%)	14.9 / 17.5

The structure of Trna 2'-Phosphotransferase (TPT1) From Aeropyrum Pernix in Complex with Adp-Ribose-2"-Phosphate and 2'-Oh Rna also contains other interesting chemical elements:

Potassium

(K)

4 atoms

The binding sites of Chlorine atom in the Trna 2'-Phosphotransferase (TPT1) From Aeropyrum Pernix in Complex with Adp-Ribose-2"-Phosphate and 2'-Oh Rna (pdb code 8tg4). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Trna 2'-Phosphotransferase (TPT1) From Aeropyrum Pernix in Complex with Adp-Ribose-2"-Phosphate and 2'-Oh Rna, PDB code: 8tg4:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in the Trna 2'-Phosphotransferase (TPT1) From Aeropyrum Pernix in Complex with Adp-Ribose-2"-Phosphate and 2'-Oh Rna


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Trna 2'-Phosphotransferase (TPT1) From Aeropyrum Pernix in Complex with Adp-Ribose-2"-Phosphate and 2'-Oh Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl208 b:21.9 occ:0.66 O A:HOH390 2.9 18.2 1.0 O A:HIS77 2.9 16.7 1.0 N A:LEU117 3.2 16.6 1.0 CE1 A:HIS120 3.2 16.9 1.0 N A:HIS77 3.3 14.8 1.0 N A:LYS118 3.3 16.7 1.0 CB A:LEU117 3.5 19.0 1.0 C A:GLY76 3.6 15.2 1.0 NE2 A:HIS120 3.7 15.3 1.0 CA A:LEU117 3.7 17.7 1.0 N A:GLY76 3.7 13.7 1.0 CB A:ARG116 3.8 17.9 1.0 C A:HIS77 3.8 15.1 1.0 CA A:GLY76 3.9 15.4 1.0 C A:LEU117 3.9 18.9 1.0 CG A:LEU117 4.0 20.4 1.0 CA A:HIS77 4.0 14.8 1.0 CB A:LYS118 4.1 18.8 1.0 C A:ARG116 4.1 16.9 1.0 CA A:LYS118 4.2 16.4 1.0 O A:LYS118 4.2 16.1 1.0 CG A:LYS118 4.3 20.2 1.0 CA A:ARG116 4.3 17.1 1.0 CB A:HIS77 4.4 15.7 1.0 O A:GLY76 4.4 15.3 1.0 ND1 A:HIS120 4.4 16.8 1.0 CD1 A:LEU117 4.4 23.0 1.0 O A:HOH431 4.5 27.1 1.0 C A:LYS118 4.7 14.8 1.0 ND1 A:HIS77 4.7 15.2 1.0 CG A:ARG116 4.7 18.4 1.0 CD A:ARG116 4.8 17.6 1.0 C A:TYR75 4.8 13.4 1.0 CD2 A:HIS120 5.0 14.9 1.0

Chlorine binding site 2 out of 2 in the Trna 2'-Phosphotransferase (TPT1) From Aeropyrum Pernix in Complex with Adp-Ribose-2"-Phosphate and 2'-Oh Rna


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Trna 2'-Phosphotransferase (TPT1) From Aeropyrum Pernix in Complex with Adp-Ribose-2"-Phosphate and 2'-Oh Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl209 b:35.5 occ:0.50 O A:HOH317 2.8 46.2 1.0 N A:ASN68 3.0 22.8 1.0 OD1 A:ASN68 3.3 38.8 1.0 CG A:ASN68 3.4 34.6 1.0 CA A:ARG67 3.7 18.8 1.0 CB A:ASN68 3.8 29.7 1.0 CB A:ARG67 3.8 21.6 1.0 C A:ARG67 3.8 19.7 1.0 ND2 A:ASN68 3.9 33.8 1.0 CA A:ASN68 3.9 25.8 1.0 CG A:ARG67 4.8 22.2 1.0

A.Jacewicz, S.Dantuluri, S.Shuman. Structural Basis For TPT1-Catalyzed 2'-Po 4 Transfer From Rna and Nadp(H) to Nad. Proc.Natl.Acad.Sci.Usa V. 120 99120 2023.
ISSN: ESSN 1091-6490
PubMed: 37883434
DOI: 10.1073/PNAS.2312999120